setup.py

   1 from distutils.core import setup, Extension
   2 from distutils.command.build_py import build_py as _build_py
   3
   4 import subprocess
   5 import os
   6
   7
   8 class ExtBuilder(_build_py):
   9    """Enhanced 'build_py' command that includes data files with packages
  10
  11    The data files are specified via a 'package_data' argument to 'setup()'.
  12    See 'setuptools.dist.Distribution' for more details.
  13
  14    Also, this version of the 'build_py' command allows you to specify both
  15    'py_modules' and 'packages' in the same setup operation.
  16    """
  17
  18    def finalize_options(self):
  19       _build_py.finalize_options(self)
  20       self.package_data = self.distribution.package_data
  21       self.data_files   = self.get_data_files()
  22
  23
  24    def run(self):
  25       """Build modules, packages, and copy data files to build directory"""
  26
  27       print """calling run...."""
  28
  29       if not self.py_modules and not self.packages:
  30          return
  31
  32       if self.py_modules:
  33          self.build_modules()
  34
  35       if self.packages:
  36          self.build_packages()
  37          self.build_package_data()
  38
  39       # Only compile actual .py files, using our base class' idea of what our
  40       # output files are.
  41       self.byte_compile(_build_py.get_outputs(self,include_bytecode=0))
  42
  43       cwd = os.getcwd()
  44
  45       print '-'*60
  46       print
  47       print """QPalma relies on two C++ extension modules:
  48       \t- ParaParser, and
  49       \t- DynProg
  50       """
  51       print
  52
  53       print "Trying to compile ParaParser..."
  54
  55       currentStep = 'cd ParaParser && make'
  56       obj = subprocess.Popen(currentStep,shell=True,stdout=subprocess.PIPE,stderr=subprocess.PIPE)
  57       out,err = obj.communicate()
  58
  59       if err != '':
  60          print out
  61          print err
  62          print '-'*60
  63
  64       os.chdir(cwd)
  65
  66       print "Trying to compile DynProg..."
  67
  68       currentStep = 'cd DynProg && make'
  69       obj = subprocess.Popen(currentStep,shell=True,stdout=subprocess.PIPE,stderr=subprocess.PIPE)
  70       out,err = obj.communicate()
  71
  72       if err != '':
  73          print out
  74          print err
  75          print '-'*60
  76
  77 #   def get_data_files(self):
  78 #
  79 #        """Generate list of '(package,src_dir,build_dir,filenames)' tuples"""
  80 #
  81 #        data = []
  82 #
  83 #        for package in self.packages:
  84 #            # Locate package source directory
  85 #            src_dir = self.get_package_dir(package)
  86 #
  87 #            # Compute package build directory
  88 #            build_dir = os.path.join(*([self.build_lib]+package.split('.')))
  89 #
  90 #            # Length of path to strip from found files
  91 #            plen = len(src_dir)+1
  92 #
  93 #            # Strip directory from globbed filenames
  94 #            filenames = [
  95 #                file[plen:] for file in self.find_data_files(package, src_dir)
  96 #            ]
  97 #
  98 #            data.append( (package, src_dir, build_dir, filenames) )
  99 #
 100 #        return data
 101 #
 102 #
 103 #    def find_data_files(self, package, src_dir):
 104 #
 105 #        """Return filenames for package's data files in 'src_dir'"""
 106 #
 107 #        globs = self.package_data.get('',[])+self.package_data.get(package,[])
 108 #        files = []
 109 #
 110 #        for pattern in globs:
 111 #            # Each pattern has to be converted to a platform-specific path
 112 #            files.extend(glob(os.path.join(src_dir, convert_path(pattern))))
 113 #
 114 #        return files
 115 #
 116 #
 117 #
 118 #    def build_package_data(self):
 119 #
 120 #        """Copy data files into build directory"""
 121 #
 122 #        lastdir = None
 123 #
 124 #        for package, src_dir, build_dir, filenames in self.data_files:
 125 #
 126 #            for filename in filenames:
 127 #                target = os.path.join(build_dir,filename)
 128 #                self.mkpath(os.path.dirname(target))
 129 #                self.copy_file(os.path.join(src_dir,filename), target)
 130 #
 131 #
 132 #    def get_outputs(self, include_bytecode=1):
 133 #
 134 #        """Return complete list of files copied to the build directory
 135 #
 136 #        This includes both '.py' files and data files, as well as '.pyc' and
 137 #        '.pyo' files if 'include_bytecode' is true.  (This method is needed for
 138 #        the 'install_lib' command to do its job properly, and to generate a
 139 #        correct installation manifest.)
 140 #        """
 141 #
 142 #        return _build_py.get_outputs(include_bytecode) + [
 143 #            os.path.join(build_dir,filename)
 144 #                for package,src_dir,build_dir,filenames in self.data_files
 145 #                    for filename in filenames
 146 #        ]
 147 #
 148
 149 setup (
 150    name = 'QPalma',
 151    description = 'A package for optimal alignment of short reads',
 152    version = '0.9',
 153    long_description = '''
 154    A
 155    ''',
 156    author = 'Fabio De Bona, Gunnar Raetsch',
 157    author_email = 'fabio@tuebingen.mpg.de',
 158    url = 'http://',
 159    license = 'GNU GPL version 3',
 160    #ext_package = "qpalma",
 161    #ext_modules = extmods,
 162    package_dir = {"qpalma": "qpalma"},
 163    packages = ["qpalma","scripts"],
 164    cmdclass={'build_py': ExtBuilder}
 165    )